International Conference on Biomedical Ontology
University at Buffalo, NY · July 24-26, 2009
Ontologies are being used in a variety of ways by researchers in almost every life science discipline, and their use in annotation of both clinical and experimental data is now a common technique in integrative translational research. Principles-based ontologies are being developed for the description of biological and biomedical phenomena of almost every different type. To be maximally effective, such ontologies must work well together. But as ontologies become more commonly used, the problems involved in achieving coordination in ontology development become ever more urgent. To address these problems there is a need for an overarching conference which brings together representatives of all major communities involved in the development and application of ontologies in biomedicine and related areas. ICBO is designed to meet this need. More information about ICBO 2009 is available on the conference website.
Virtual Fly Brain: An ontology-linked schema of the Drosophila Brain
Drosophila neuro-anatomical data is scattered across a large, diverse literature dating back over 75 years and a growing number of community databases. Lack of a standardized nomenclature for neuro…
Received 17 November 2009 10:39 UTC; Posted 17 November 2009
Posted to: Neuroscience, Bioinformatics
Overcoming the Ontology Enrichment Bottleneck with Quick Term Templates
The developers of the Ontology of Biomedical Investigations (OBI) primarily use Protégé for editing. However, adding many classes with similar patterns of logical definition is time consuming, erro…
Received 12 November 2009 11:08 UTC; Posted 16 November 2009
Posted to: Bioinformatics
BioPortal: Ontologies and Integrated Data Resources at the Click of a Mouse
BioPortal (http://bioportal.bioontology.org) is an open repository of biomedical ontologies that provides programmatic and web-based access to ontologies develope…
Received 16 October 2009 10:08 UTC; Posted 16 October 2009
Posted to: Bioinformatics
Developing an application ontology for annotation of experimental variables – Experimental Factor Ontology
The Experimental Factor Ontology (www.ebi.ac.uk/efo) is an application focused ontology modelling the experimental factors in ArrayExpress. The ontology has been develope…
Received 25 September 2009 21:09 UTC; Posted 25 September 2009
Posted to: Bioinformatics
ChemAxiom – An Ontological Framework for Chemistry in Science
We present ChemAxiom as the first ontological framework for chemistry in science. ChemAxiom enables discourse about chemical objects in a computable language and is useful for the management of che…
Received 03 September 2009 11:23 UTC; Posted 03 September 2009
Posted to: Chemistry, Bioinformatics
Creating a Translational Medicine Ontology
AbstractWe, participants in the Translational Medicine Ontology activity of the World Wide Web Consortium’s Health Care and Life Sciences Interest Group (http://esw.w3.org/topic/HCLSIG...
Received 24 August 2009 19:59 UTC; Posted 26 August 2009
Posted to: Developmental Biology, Genetics & Genomics, Immunology, Molecular Cell Biology, Neuroscience, Pharmacology, Bioinformatics
Development of an Ontology of Microbial Phenotypes (OMP)
AbstractPhenotypic data are routinely used to elucidate gene and protein function in most organisms amenable to experimental manipulation. However, although phenotype ontologies exist for many …
Received 17 August 2009 22:31 UTC; Posted 19 August 2009
Posted to: Microbiology, Bioinformatics
Hematopoietic Cell Types: Prototype for a Revised Cell Ontology
The Cell Ontology (CL) aims for the representation of in vivo and in vitro cell types from all of biology. Although the CL is a reference ontology of the OBO Foundry, it requires extensive revisio…
Received 17 August 2009 19:08 UTC; Posted 19 August 2009
Posted to: Immunology, Bioinformatics
The Role of Bio-Ontologies in Data-Driven Research: A Philosophical Perspective
This project aims to reach a philosophical understanding of the role played by theory in the practices of data dissemination and re-use that characterise data-driven research. Bio-ontologies have t…
Received 18 August 2009 12:42 UTC; Posted 18 August 2009
Posted to: Bioinformatics
Hematopoietic Cell Types: Prototype for a Revised Cell Ontology
The Cell Ontology (CL) is an OBO Foundry candidate ontology intended for the representation of cell types from all of biology. A recent workshop sponsored by NIAID on hematopoietic cell types in t…
Received 17 August 2009 19:29 UTC; Posted 18 August 2009
Posted to: Immunology, Bioinformatics